RetrogeneDB ID: retro_pper_16

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_4:11240332..11241625(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa017157mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa005968mg
• Aliases: None
• Description: None

Sequence

>retro_pper_16
ATGAAGAAGCAGTTCAAGTACGTGATCATTGGTGGTGGAGTTGCAGCTGGATATGCAGCAAGGGAGTTTGTTAAACAAGG
CCTGAAACCAGGTGAGTTAGCAATCATATCAAAAGAAGCAGTGGCACCTTATGAACGCCCAACACTTAGTAAGGCCTATC
TGTTTCCTGAGGGAGCTGCCAGACTTCCAGGCTTCCATGTCTGTGTTGGAAGTGGAGGAGAGAGGCTGCTTCCTGAGTGG
TATGTGAAGAAAGGTATTGAGTTAATTCTCAGCACAGAAATAGCTGAAGTAGATCTTCATTCGAAGACCCTCACTAGTAC
CACCGGGAGAACCTTCGAATTTCAAACTTTGATCATTGCAACTGGCTCCAGAGTTATAAGGTTGACAGATTTTGGTGTAC
AAGGAGCTGATGCCAAAAATATTTTCTACTTGAGAGAAATCAGTGATGCTGATGAACTTGTAGAAGCAATTAGAGCTAAG
AAAAAGGGAAAGGTAGTGATTGTTGGAGGAGGATACATAGGTCTTGAAGTCGGAGCAGCTATGAGAATCAACCAATTTGA
CGTTACCATGGTTTTTCCGGAGCCATGGTGCATGCCTCGGCTTTTCACTAAAGAGATAGCTGCTTTCTATGAGGCTTACT
ATGCTAACAAAGGAATTAAAATCATCAAGGGTACAGTTGCAGTTGCGTTCGATGCTGATACGAATGGAGAGGTAAAGGCA
GTGAAACTCAACGATGACAGGGTACTGCAAGCTGATATTGTAGTTGTTGGGGTTGGGGCAAAGCCTCTCACTGAGTTATT
CAAAGGGCAAGTTGATGAAGAGAAAGGTGGCATCAGAACTGATGGAATGCTTGAAACAAATGTCCCGGATGTATATGCTG
TAGGTGATGTGACTACTTTCCCTCTGAAATTGTACAATGACATGAGAAGAATTGAGCATGTTGACCATGCCAGGAAATCA
GCTGAGCAAGCTGTGAAAGCTATCAGGGCAAGTGAAGAAGGGAAATCCATTGAAGTGTATGACTACCTTCCATACTTCTA
TTCGCGTGCCTTTGATCTTTCGTGGAAGTTTTACGGAGACAATGTTGGTGATCCATTGATGTTTGGAGACAAAAACCCAG
CATCCGGAAAGCCAAAGTTTGGAACAGCATGGATCAAGAATGGGAAGATTGTGGGAGTGTTTTTAGAGGGAGGGACAGAT
GAAGAAAACAAGGCTATTGCCACAATGGCTAGGGTCCAACCTCCAGCTGAGTATTTGGATCAACTGAAAAAGGAGGGTTA
TTTCATTGCTTGA

Alignment

ORF - retro_pper_16 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.87 %
• Parental protein coverage: 98.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KNFKYVILGGGVSAGYAAREFAKQGLKPGELAVISKEAVAPYERPALSKAYLFPESPARLPGFHVCVGSG
          K.FKYVI.GGGV.AGYAAREF.KQGLKPGELA.ISKEAVAPYERP.LSKAYLFPE..ARLPGFHVCVGSG
Retrocopy KQFKYVIIGGGVAAGYAAREFVKQGLKPGELAIISKEAVAPYERPTLSKAYLFPEGAARLPGFHVCVGSG

Parental  GERLLPEWYKENGIELILSTEIVKVDLAGKTLVSGNGESFKYQTLVVSTGSTVIRLTDFGVKGAEAKNIF
          GERLLPEWY...GIELILSTEI..VDL..KTL.S..G..F..QTL...TGS.VIRLTDFGV.GA.AKNIF
Retrocopy GERLLPEWYVKKGIELILSTEIAEVDLHSKTLTSTTGRTFEFQTLIIATGSRVIRLTDFGVQGADAKNIF

Parental  YLREIDDADKLNEAIKSKKNGKAVIVGGGYIGLELGAALRINNLDVKMVYPEPWCMPRLFTSGIAAFYEG
          YLREI.DAD.L.EAI..KK.GK.VIVGGGYIGLE.GAA.RIN..DV.MV.PEPWCMPRLFT..IAAFYE.
Retrocopy YLREISDADELVEAIRAKKKGKVVIVGGGYIGLEVGAAMRINQFDVTMVFPEPWCMPRLFTKEIAAFYEA

Parental  YYANKGIKIIKGTVAVGFTANSDGEVKEVHLKDGTVLEADIVVVGVGGRPLTTLFKGQVEEEKGGIKTDA
          YYANKGIKIIKGTVAV.F.A...GEVK.V.L.D..VL.ADIVVVGVG..PLT.LFKGQV.EEKGGI.TD.
Retrocopy YYANKGIKIIKGTVAVAFDADTNGEVKAVKLNDDRVLQADIVVVGVGAKPLTELFKGQVDEEKGGIRTDG

Parental  FFKTSVPDVYAVGDVATFPLKLYNEIRRVEHVDHARKSAEQAVKAIKASEEGKTIEEYDYLPFFYSRSFD
          ...T.VPDVYAVGDV.TFPLKLYN..RR.EHVDHARKSAEQAVKAI.ASEEGK.IE.YDYLP.FYSR.FD
Retrocopy MLETNVPDVYAVGDVTTFPLKLYNDMRRIEHVDHARKSAEQAVKAIRASEEGKSIEVYDYLPYFYSRAFD

Parental  LSWQFYGDNVGETVLFGDNNPTSPKPKFGTYWIKDGKVVGAFLEGGSPEENQAIAKVAKVQPPVASLDQL
          LSW.FYGDNVG....FGD.NP.S.KPKFGT.WIK.GK.VG.FLEGG..EEN.AIA..A.VQPP...LDQL
Retrocopy LSWKFYGDNVGDPLMFGDKNPASGKPKFGTAWIKNGKIVGVFLEGGTDEENKAIATMARVQPPAEYLDQL

Parental  AKEGLSFA
          .KEG...A
Retrocopy KKEGYFIA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Prunus persica was not studied using RNA-Seq expression data.

ChIP-Seq

Prunus persica was not studied using ChIP-Seq data.

EST

Prunus persica was not studied using EST data.

TSS

Prunus persica was not studied using FANTOM5 data.

Lab

retro_pper_16 was not experimentally validated.

Homology

Retrocopy orthology:

Prunus persica does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Prunus persica	PRUPE_ppa005968mg	1 retrocopy	retro_pper_16 ,